Significance of CD8+ T cell infiltration-related biomarkers and the corresponding prediction model for the prognosis of kidney renal clear cell carcinoma

Tian, Yuan; Wei, Yuqiu; Li, Hongmei; Shang, Heli; Xu, Yueqin; Wu, Tong; Liu, Wei; Huang, Alan; Dang, Qi; Sun, Yuping

doi:10.18632/aging.203584

Cited by 5 publications

(5 citation statements)

References 49 publications

(52 reference statements)

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“…[ 24 , 25 ] Previous studies have raised that CD8T cell infiltration was associated with the results of immunotherapy. [ 26 ] Furthermore, Nalio Ramos et al [ 27 ] have elucidated the impact of CD8T cells on the function of macrophages in breast cancer. Additionally, Bachiller et al [ 28 ] found have discovered that NK cells enhance the tumor-suppressive function of T cells, which suggested that the interaction of immune cells was meaningful for the tumor development.…”

Section: Discussionmentioning

confidence: 99%

Establishment and validation of a novel risk model based on CD8T cell marker genes to predict prognosis in thyroid cancer by integrated analysis of single-cell and bulk RNA-sequencing

Du,

Song,

Wang

et al. 2023

Medicine

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Papillary thyroid cancer (PTC) is a histological type of thyroid cancer, and CD8T is important for the immune response. The single-cell RNA data were acquired from Gene Expression Omnibus. SingleR package was used for cluster identification, and CellChat was exploited to evaluate the interaction among several cell types. Bulk RNA data obtained from the cancer genome atlas were used for determination of prognosis using Kaplan–Meier and Receiver Operating Characteristic curve. The Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analysis were applied for assessment of function enrichment. The drug sensitivity was calculated in Gene Set Cancer Analysis. The regulatory network was constructed by STRING and Cytoscape. We identified 23 cell clusters and 10 cell types. Cell communication results showed CD8T cell was vital among all immune cell types. Enrichment analysis found the marker genes of CD8T cell was enriched in some signal pathways related to tumor development. Overall, FAM107B and TUBA4A were considered as hub genes and used to construct a risk model. Most immune checkpoint expressions were upregulated in tumor group. Tumor mutation burden results indicated that prognosis of PTC was not related to the mutation of hub genes. Drug sensitivity analysis showed some drugs could be effectively used for the treatment of PTC, and regulatory network identified some targets for the immunotherapy. A 2-gene model of PTC was developed based on the single-cell RNA and bulk RNA data. Besides, we found CD8T was essential for the immune response in PTC.

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Section: Discussionmentioning

confidence: 99%

Establishment and validation of a novel risk model based on CD8T cell marker genes to predict prognosis in thyroid cancer by integrated analysis of single-cell and bulk RNA-sequencing

Du,

Song,

Wang

et al. 2023

Medicine

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“…As a result, in immunodeficiency pattern patients, improving immune function may be beneficial in terms of prognosis. Numerous studies have found that a dense infiltration of T cells, particularly cytotoxic [ 15 , 16 ], predicts a favorable outcome. However, immune cluster B did not show the expected survival advantage.…”

Section: Discussionmentioning

confidence: 99%

Glioblastoma: two immune subtypes under the surface of the cold tumor

Xiong

Cong

Kong

et al. 2022

Aging

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Glioblastoma is classified as an immunocompromised tumor. The immune pattern beneath the cold tumor surface, however, has yet to be confirmed. Understanding the immune pattern of glioblastoma will aid in the development of effective treatment strategies. We performed weighted gene co-expression network analysis on all immune-related genes in TCGA-GBM transcriptional data and screened 35 prognosis-related immune genes. Unsupervised consistent clustering of these genes was used to analyze the immunological pattern of GBM. A glioblastoma immune prognostic score was developed by using 13 genes discovered by cox regression methods and verified with the GEO dataset to assess the immune profile, prognosis, and immunotherapy effects in individual patients. Glioblastoma has two immune modalities, immune tolerance and immunodeficiency, with distinct immune microenvironments, tumor-associated macrophages being one of the most promising new therapeutic targets. GIPS is a promising biomarker for assessing immune evasion mechanisms, immunotherapy responses, and prognosis in patients.

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“…Seven medications that target the VHL signaling pathway have been approved by the Food and Drug Administration (FDA), although data that support their use in improving clinical outcomes and survival in patients with KIRC are limited. [12] Therefore, further research on the development and prognosis prediction of KIRC is warranted to gain deeper insights into its pathogenesis at the molecular level and identify new targets for therapeutic intervention. In recent years, bioinformatics technology has facilitated the development of numerous tools to identify biomarkers.…”

Section: Introductionmentioning

confidence: 99%

Identification of a seven-gene prognostic model for kidney renal cell carcinoma associated with CD8+T lymphocyte cell

Liu,

Yin

2023

Preprint

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CD8 + T lymphocytes are important elements of the tumor immune microenvironment (TIME), hence their involvement in the development and progression of tumors is complex. Data on the precise tumor-infiltrating immune cells (TIICs) gene signature in kidney cancer (KIRC) remain limited. Therefore, this study created a TIICs-related predictive model for patients with KIRC using data from The Cancer Genome Atlas (TCGA). The most important genes associated with CD8 + T lymphocytes were identified using weighted gene co-expression network analysis (WGCNA). Functional categories of important genes were revealed using gene ontology (GO) enrichment and Kyoto encyclopedia of genes and genomes (KEGG) signaling pathway analyses. A CD8 + T lymphocyte-related prognostic model with seven important genes was simultaneously created using the least absolute shrinkage and selection operator (LASSO), univariate and multivariate Cox regressions, and the hub genes EOMES, SIRPG, PTPN7, CD3G, APOBEC3G, FASLG, and TIGIT, which were expressed particularly in CD8 + T lymphocytes according to single-cell sequencing data obtained from the Gene Expression Omnibus (GEO). Finally, we used PCR to verify the expression of hub gene in KIRC.This study identified seven genes associated with CD8 + T lymphocytes that may influence risk stratification in patients with KIRC and serve as possible CD8 + T lymphocyte-related biomarkers.

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Significance of CD8+ T cell infiltration-related biomarkers and the corresponding prediction model for the prognosis of kidney renal clear cell carcinoma

Cited by 5 publications

References 49 publications

Establishment and validation of a novel risk model based on CD8T cell marker genes to predict prognosis in thyroid cancer by integrated analysis of single-cell and bulk RNA-sequencing

Establishment and validation of a novel risk model based on CD8T cell marker genes to predict prognosis in thyroid cancer by integrated analysis of single-cell and bulk RNA-sequencing

Glioblastoma: two immune subtypes under the surface of the cold tumor

Identification of a seven-gene prognostic model for kidney renal cell carcinoma associated with CD8+T lymphocyte cell

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